GMT Tutorial Exercise 8
Search GEMDB "“ Retrieve all the data in a GEMDB project, but exclude data for specified markers
This kind of search can be convenient to exclude "poor" marker data from a data set.
- Select GEMDB and then SEARCH.
- Select Tag: All
- Select Group: All
- Select Project: "your name_demo" (created in Exercise 4, and where demo genotype data was imported in Exercise 5. Please ensure both exercises have been completed beforehand.)
- Select Run: "2005-11-28_Plate1"
- Leave all the "following" settings (Other, Marker, Allele, "¦) at their defaults or blank.
- Click Search.
- Note the "search number" for this search in the Search History table, e.g. "2".
- If you haven't already done Exercise 7, do it now for marker "hv0790".
- Note the "search number" for the marker-specific search in the Search History table, e.g. "5".
- In the Combine Searches text field, enter the search numbers noted in step 8 and 10 above, separated by "NOT" (e.g. "2 NOT 5"). If the results from more than one search (numbered e.g. "2", "3", "4", and "5") are to be excluded from another data set (numbered e.g. "1"), this can be entered as "1 NOT (2 OR 3 OR 4 OR 5)". Note the use of brackets to define operator precedence in this example.
- Click View Results next to the text box. This retrieves all the data from the specified GEMDB project without the data for individual markers selected in Exercise 7.
- To retrieve combined search results again at a later time without having to repeat all the individual search steps, click Tag all results.
- In the tagging interface that opens, enter a Name for the new tag and choose GEMDB tag from the drop-down box.
- This opens the TAGS»GEMDB interface. Next to the new tag, click on View Markers. Alternatively, the tagged results can from now on be selected with the Tag drop-down box in GEMDB»SEARCH.
- Try the different display options, and download the search results, if desired.
 The Combine Searches text box (highlighted in green) on the GEMDB»IMPORT interface. |
